RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

Searching..................................................done

Query= gi|254780948|ref|YP_003065361.1| DNA repair protein RecO
[Candidatus Liberibacter asiaticus str. psy62]
         (240 letters)



>1u5k_A Hypothetical protein; OBD-fold, Zn-binding,
           recombination,replication; 2.00A {Deinococcus
           radiodurans R1} (A:83-244)
          Length = 162

 Score = 63.8 bits (155), Expect = 2e-11
 Identities = 17/128 (13%), Positives = 34/128 (26%), Gaps = 9/128 (7%)

Query: 97  LFRFLPEREPCLELYDMLNIFLNCHKIPSVIGKIFVQIELMLLKNIGFGLDLTKCVVTGV 156
                 E E   + +D+    L           + + +   LL   G      +C   G 
Sbjct: 17  ADALFQEGEFSEQAFDLFAASLRGVAHQPDPEWVALVMSYKLLGLAGVIPQTARCARCG- 75

Query: 157 TQDLLWVSPKSGGAVCRSVGLP--------YAEKMLVLPSFLWKEEQTIDADSLKSAFQL 208
             D     P  G  +C                 +  V  +     EQ + +    + ++ 
Sbjct: 76  APDPEHPDPLGGQLLCSKCAALPPYPPAVLDFLRHAVRRTVRASFEQPVPSADRPALWRA 135

Query: 209 TDYFLNKY 216
            + F+   
Sbjct: 136 LEKFVTVQ 143


>1u5k_A Hypothetical protein; OBD-fold, Zn-binding,
          recombination,replication; 2.00A {Deinococcus
          radiodurans R1} (A:1-82)
          Length = 82

 Score = 63.6 bits (155), Expect = 2e-11
 Identities = 13/76 (17%), Positives = 26/76 (34%), Gaps = 2/76 (2%)

Query: 3  WQDDAIILGVRSYGEKNIILEVMTRQYGRHLGFVRNGQSHRMQPILQAGNLVRVNWRSRL 62
               I++  R     +II+ ++T Q G+     R G    +   L   + V V      
Sbjct: 6  ANRSGIVIRRRVTPAGDIIVTLLTPQ-GKLKAIARGGVKGPLSSSLNLFHHVGVQVYQGP 64

Query: 63 AQNLGEFR-FEVLESH 77
            +L   +   +  + 
Sbjct: 65 HNDLASVKQAVLEGAL 80


>3jyw_C 60S ribosomal protein L3; eukaryotic ribosome, RACK1
           protein, flexible fitting; 8.90A {Thermomyces
           lanuginosus} PDB: 1s1i_C (C:40-78,C:206-362)
          Length = 196

 Score = 29.4 bits (66), Expect = 0.48
 Identities = 9/47 (19%), Positives = 14/47 (29%), Gaps = 1/47 (2%)

Query: 24  VMTRQYGRHLGFVRNGQSHRMQPILQAGNLVRVNWRSRLAQNLGEFR 70
           V  R +G      +  +  R    + A +   V W    A   G   
Sbjct: 59  VTHR-WGTKKLPRKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHS 104


>3dfx_A Trans-acting T-cell-specific transcription factor GATA-3;
           activator, DNA-binding, metal-binding, nucleus; HET:
           DNA; 2.70A {Mus musculus} PDB: 3dfv_D* 2gat_A* 3gat_A*
           1gat_A* 1gau_A* (A:)
          Length = 63

 Score = 27.6 bits (61), Expect = 1.4
 Identities = 14/45 (31%), Positives = 18/45 (40%)

Query: 149 TKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLPSFLWKE 193
           T C     T   LW    +G  VC + GL Y    +  P  + KE
Sbjct: 8   TSCANCQTTTTTLWRRNANGDPVCNACGLYYKLHNINRPLTMKKE 52


>1i82_A Xylanase A, endo-1,4-beta-xylanase A; cellobiose complex,
           hydrolase; HET: BGC; 1.90A {Thermotoga maritima} (A:)
          Length = 189

 Score = 26.9 bits (59), Expect = 2.4
 Identities = 8/72 (11%), Positives = 21/72 (29%), Gaps = 1/72 (1%)

Query: 2   YWQDDAIILGVRSYGEKNIILEVMTRQYGRHLGFVRNGQSHRMQPILQ-AGNLVRVNWRS 60
            W+ D++ + +     K    E    Q+  +    +   +       + A  L+   +  
Sbjct: 71  PWEQDSVEIFIDENNHKTGYYEDDDAQFRVNYMNEQTFGTGGSPARFKTAVKLIEGGYIV 130

Query: 61  RLAQNLGEFRFE 72
             A      +  
Sbjct: 131 EAAIKWKTIKPT 142


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
           photosynthetic reaction center, peripheral antenna; HET:
           CL1 PQN; 4.44A {Pisum sativum} (F:1-76)
          Length = 76

 Score = 26.6 bits (58), Expect = 2.8
 Identities = 9/36 (25%), Positives = 12/36 (33%), Gaps = 11/36 (30%)

Query: 75  ESHCAKLLSSSLFLYGLQSIVPLFRFLPEREPCLEL 110
           E    K L +SL LY             +  P L +
Sbjct: 18  EKQALKKLQASLKLYA-----------DDSAPALAI 42


>2ftc_C L3MT, MRP-L3, mitochondrial 39S ribosomal protein L3;
          mitochondrial ribosome, large ribosomal subunit,
          ribosomal RNA; 12.10A {Bos taurus} (C:1-29,C:104-211)
          Length = 137

 Score = 25.9 bits (57), Expect = 5.3
 Identities = 12/49 (24%), Positives = 22/49 (44%), Gaps = 3/49 (6%)

Query: 24 VMTRQYGRHLGFVRNGQS--HRMQPILQAGNLVRVNWRSRLAQNLGEFR 70
          VM R +G       +GQ+  HR    +  G++ RV   +++   +G   
Sbjct: 49 VMKR-WGFKGQPATHGQTKTHRRPGAVATGDIGRVWPGTKMPGKMGNIY 96


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.327    0.143    0.439 

Gapped
Lambda     K      H
   0.267   0.0630    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,832,694
Number of extensions: 78335
Number of successful extensions: 244
Number of sequences better than 10.0: 1
Number of HSP's gapped: 241
Number of HSP's successfully gapped: 9
Length of query: 240
Length of database: 4,956,049
Length adjustment: 86
Effective length of query: 154
Effective length of database: 2,048,819
Effective search space: 315518126
Effective search space used: 315518126
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.4 bits)